Literature DB >> 25175416

From barcoding single individuals to metabarcoding biological communities: towards an integrative approach to the study of global biodiversity.

Melania E Cristescu1.   

Abstract

DNA-based species identification, known as barcoding, transformed the traditional approach to the study of biodiversity science. The field is transitioning from barcoding individuals to metabarcoding communities. This revolution involves new sequencing technologies, bioinformatics pipelines, computational infrastructure, and experimental designs. In this dynamic genomics landscape, metabarcoding studies remain insular and biodiversity estimates depend on the particular methods used. In this opinion article, I discuss the need for a coordinated advancement of DNA-based species identification that integrates taxonomic and barcoding information. Such an approach would facilitate access to almost 3 centuries of taxonomic knowledge and 1 decade of building repository barcodes. Conservation projects are time sensitive, research funding is becoming restricted, and informed decisions depend on our ability to embrace integrative approaches to biodiversity science.
Copyright © 2014 Elsevier Ltd. All rights reserved.

Keywords:  DNA barcoding; environmental DNA (eDNA); metabarcoding; second-generation sequencing; sequence biodiversity; taxonomy crisis

Mesh:

Substances:

Year:  2014        PMID: 25175416     DOI: 10.1016/j.tree.2014.08.001

Source DB:  PubMed          Journal:  Trends Ecol Evol        ISSN: 0169-5347            Impact factor:   17.712


  72 in total

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Journal:  J Environ Manage       Date:  2017-07-22       Impact factor: 6.789

2.  A protocol for obtaining DNA barcodes from plant and insect fragments isolated from forensic-type soils.

Authors:  Kelly A Meiklejohn; Megan L Jackson; Libby A Stern; James M Robertson
Journal:  Int J Legal Med       Date:  2018-02-08       Impact factor: 2.686

3.  Metabarcoding of Fish Larvae in the Merbok River Reveals Species Diversity and Distribution Along its Mangrove Environment.

Authors:  Norli Fauzani Mohd Abu Hassan Alshari; Siti Zuliana Ahmad; Azali Azlan; Youn-Ho Lee; Ghows Azzam; Siti Azizah Mohd Nor
Journal:  Zool Stud       Date:  2021-12-22       Impact factor: 1.904

4.  Metagenomics versus total RNA sequencing: most accurate data-processing tools, microbial identification accuracy and perspectives for ecological assessments.

Authors:  Christopher A Hempel; Natalie Wright; Julia Harvie; Jose S Hleap; Sarah J Adamowicz; Dirk Steinke
Journal:  Nucleic Acids Res       Date:  2022-08-18       Impact factor: 19.160

5.  Fluctuating insect diversity, abundance and biomass across agricultural landscapes.

Authors:  Axel Hausmann; Werner Ulrich; Andreas H Segerer; Thomas Greifenstein; Johannes Knubben; Jerôme Morinière; Vedran Bozicevic; Dieter Doczkal; Armin Günter; Jörg Müller; Jan Christian Habel
Journal:  Sci Rep       Date:  2022-10-21       Impact factor: 4.996

6.  DNA Barcoding for Identification of Sugarcane Borers in China.

Authors:  J- D Wang; W- Z Wang; Z- L Lin; A Ali; H- Y Fu; M- T Huang; S- J Gao; R Wang
Journal:  Neotrop Entomol       Date:  2017-09-30       Impact factor: 1.434

7.  Landscape analyses using eDNA metabarcoding and Earth observation predict community biodiversity in California.

Authors:  Meixi Lin; Ariel Levi Simons; Ryan J Harrigan; Emily E Curd; Fabian D Schneider; Dannise V Ruiz-Ramos; Zack Gold; Melisa G Osborne; Sabrina Shirazi; Teia M Schweizer; Tiara N Moore; Emma A Fox; Rachel Turba; Ana E Garcia-Vedrenne; Sarah K Helman; Kelsi Rutledge; Maura Palacios Mejia; Onny Marwayana; Miroslava N Munguia Ramos; Regina Wetzer; N Dean Pentcheff; Emily Jane McTavish; Michael N Dawson; Beth Shapiro; Robert K Wayne; Rachel S Meyer
Journal:  Ecol Appl       Date:  2021-07-08       Impact factor: 6.105

8.  Biodiversity inventories in high gear: DNA barcoding facilitates a rapid biotic survey of a temperate nature reserve.

Authors:  Angela C Telfer; Monica R Young; Jenna Quinn; Kate Perez; Crystal N Sobel; Jayme E Sones; Valerie Levesque-Beaudin; Rachael Derbyshire; Jose Fernandez-Triana; Rodolphe Rougerie; Abinah Thevanayagam; Adrian Boskovic; Alex V Borisenko; Alex Cadel; Allison Brown; Anais Pages; Anibal H Castillo; Annegret Nicolai; Barb Mockford Glenn Mockford; Belén Bukowski; Bill Wilson; Brock Trojahn; Carole Ann Lacroix; Chris Brimblecombe; Christoper Hay; Christmas Ho; Claudia Steinke; Connor P Warne; Cristina Garrido Cortes; Daniel Engelking; Danielle Wright; Dario A Lijtmaer; David Gascoigne; David Hernandez Martich; Derek Morningstar; Dirk Neumann; Dirk Steinke; Donna DeBruin Marco DeBruin; Dylan Dobias; Elizabeth Sears; Ellen Richard; Emily Damstra; Evgeny V Zakharov; Frederic Laberge; Gemma E Collins; Gergin A Blagoev; Gerrie Grainge; Graham Ansell; Greg Meredith; Ian Hogg; Jaclyn McKeown; Janet Topan; Jason Bracey; Jerry Guenther; Jesse Sills-Gilligan; Joseph Addesi; Joshua Persi; Kara K S Layton; Kareina D'Souza; Kencho Dorji; Kevin Grundy; Kirsti Nghidinwa; Kylee Ronnenberg; Kyung Min Lee; Linxi Xie; Liuqiong Lu; Lyubomir Penev; Mailyn Gonzalez; Margaret E Rosati; Mari Kekkonen; Maria Kuzmina; Marianne Iskandar; Marko Mutanen; Maryam Fatahi; Mikko Pentinsaari; Miriam Bauman; Nadya Nikolova; Natalia V Ivanova; Nathaniel Jones; Nimalka Weerasuriya; Norman Monkhouse; Pablo D Lavinia; Paul Jannetta; Priscila E Hanisch; R Troy McMullin; Rafael Ojeda Flores; Raphaëlle Mouttet; Reid Vender; Renee N Labbee; Robert Forsyth; Rob Lauder; Ross Dickson; Ruth Kroft; Scott E Miller; Shannon MacDonald; Sishir Panthi; Stephanie Pedersen; Stephanie Sobek-Swant; Suresh Naik; Tatsiana Lipinskaya; Thanushi Eagalle; Thibaud Decaëns; Thibault Kosuth; Thomas Braukmann; Tom Woodcock; Tomas Roslin; Tony Zammit; Victoria Campbell; Vlad Dinca; Vlada Peneva; Paul D N Hebert; Jeremy R deWaard
Journal:  Biodivers Data J       Date:  2015-08-30

9.  Potential for DNA-based identification of Great Lakes fauna: match and mismatch between taxa inventories and DNA barcode libraries.

Authors:  Anett S Trebitz; Joel C Hoffman; George W Grant; Tyler M Billehus; Erik M Pilgrim
Journal:  Sci Rep       Date:  2015-07-22       Impact factor: 4.379

10.  Standardizing metadata and taxonomic identification in metabarcoding studies.

Authors:  Leho Tedersoo; Kelly S Ramirez; R Henrik Nilsson; Aivi Kaljuvee; Urmas Kõljalg; Kessy Abarenkov
Journal:  Gigascience       Date:  2015-07-31       Impact factor: 6.524

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